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Table 2 Cluster analysis versus GO analysis. Common up- and downregulated biological processes (GO) in the cluster analysis and the GO analysis. Processes significant in more than one time point of any cell line in the GO analysis and occurring in more than one cluster of any cell line.

From: Gene expression profiles in asbestos-exposed epithelial and mesothelial lung cell lines

GO biological process Cluster analysis GO analysis
  A549 cluster number (uncorrected p-value) Beas-2B cluster number (uncorrected p-value) MeT5A cluster number (uncorrected p-value)  
Antigen processing, endogenous antigen via MHC class I 5 (9.52 × 10-10) 12 (1.31 × 10-3)   A549 1 h up A549 24 h down
Apoptotic program 9 (2.58 × 10-3) 6 (3.00 × 10-3) 2 (2.55 × 10-4) Beas-2B 24 h down A549 48 h down
Cytoskeletal anchoring 9 (2.04 × 10-3) 6 (2.44 × 10-3), 16 (1.38 × 10-3) 2 (2.85 × 10-3) A549 24 h down MeT5A 48 h down
Nucleosome assembly 1 (5.68 × 10-4) 3 (2.52 × 10-3), 5 (4.02 × 10-3), 13 (1.13 × 10-3)   Beas-2B 1 h down MeT5A 1 h up
Regulation of DNA replication 5 (9.56 × 10-3) 11 (3.02 × 10-3)   A549 1 h up A549 6 h up Beas-2B 24 h down Beas-2B 48 h down
Regulation of translational initiation 1 (7.00 × 10-5)   2 (5.73 × 10-3) A549 48 h down Beas-2B 6 h down Beas-2B 48 h down MeT5A 1 h up
Positive regulation of transcription, DNA-dependent 8 (1.59 × 10-3)   2 (3.73 × 10-3) A549 48h down Beas-2B 6h down MeT5A 1h up MeT5A 48h down
Positive regulation of I-kappaB kinase/NF-kappaB cascade 1 (5.98 × 10-3), 4 (1.03 × 10-4) 1 (2.36 × 10-3), 16 (1.17 × 10-4) 2 (2.07 × 10-3) A549 6h up A549 24h down A549 48h down Beas-2B 6h down Beas-2B 24h down Beas-2B 48h down MeT5A 1h up
Negative regulation of survival gene product activity 8 (9.92 × 10-3)   2 (4.06 × 10-4) A549 6h up A549 24h down A549 48h down Beas-2B 1h down Beas-2B 24h down Beas-2B 48h down MeT5A 1h up MeT5A 48h down